metabolomicsWorkbenchR
Metabolomics Workbench in R
Bioconductor version: Release (3.20)
This package provides functions for interfacing with the Metabolomics Workbench RESTful API. Study, compound, protein and gene information can be searched for using the API. Methods to obtain study data in common Bioconductor formats such as SummarizedExperiment and MultiAssayExperiment are also included.
Author: Gavin Rhys Lloyd [aut, cre], Ralf Johannes Maria Weber [aut]
Maintainer: Gavin Rhys Lloyd <g.r.lloyd at bham.ac.uk>
citation("metabolomicsWorkbenchR")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("metabolomicsWorkbenchR")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("metabolomicsWorkbenchR")| Example using structToolbox | HTML | R Script |
| Introduction_to_metabolomicsWorkbenchR | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Metabolomics, Software |
| Version | 1.16.0 |
| In Bioconductor since | BioC 3.12 (R-4.0) (4 years) |
| License | GPL-3 |
| Depends | R (>= 4.0) |
| Imports | data.table, httr, jsonlite, methods, MultiAssayExperiment, struct, SummarizedExperiment, utils |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, covr, knitr, HDF5Array, httptest, rmarkdown, structToolbox, testthat, pmp, grid, png |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | fobitools, MetMashR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | metabolomicsWorkbenchR_1.16.0.tar.gz |
| Windows Binary (x86_64) | metabolomicsWorkbenchR_1.16.0.zip (64-bit only) |
| macOS Binary (x86_64) | metabolomicsWorkbenchR_1.16.0.tgz |
| macOS Binary (arm64) | metabolomicsWorkbenchR_1.16.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/metabolomicsWorkbenchR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/metabolomicsWorkbenchR |
| Bioc Package Browser | https://code.bioconductor.org/browse/metabolomicsWorkbenchR/ |
| Package Short Url | https://bioconductor.org/packages/metabolomicsWorkbenchR/ |
| Package Downloads Report | Download Stats |